Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 170 of 318
Found at i:52876071 original size:46 final size:45
Alignment explanation
Indices: 52876021--52876196 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 45
52876011 TGTTTGGGCA
52876021 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
52876067 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
52876114 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * * *
52876160 CCCGAGCTCATTGAGTTGAGTCCGAATTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
52876197 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 67 0.61
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:52879965 original size:53 final size:53
Alignment explanation
Indices: 52879783--52879989 Score: 225
Period size: 53 Copynumber: 3.8 Consensus size: 53
52879773 ATTAGGGTTT
* * * * *
52879783 AAGGATACCAAGTAAGACCATGCCAAGACATGACATTGGTAAGTTTTAGAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAG-TTCATAAGGC
* * * * * * *
52879837 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTC-ATAAGGC
* * * *
52879892 AAAGATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
* *
52879945 AAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
52879990 TAAAAAGAGA
Statistics
Matches: 124, Mismatches: 27, Indels: 5
0.79 0.17 0.03
Matches are distributed among these distances:
53 46 0.37
54 38 0.31
55 40 0.32
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.20
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
Found at i:52883429 original size:29 final size:29
Alignment explanation
Indices: 52883396--52883469 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
52883386 GTGACGAGAT
52883396 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
52883425 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
52883454 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
52883470 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:52883485 original size:29 final size:29
Alignment explanation
Indices: 52883453--52883528 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
52883443 CTGGAAATAT
* *
52883453 ATGGCACTAAGTGTGCGAG-CTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCCT-AAAGCGC
** * *
52883482 ATGGCACTGTGTGTGCGGGCCTAAATCGC
1 ATGGCACTAAGTGTGCGAGCCTAAAGCGC
52883511 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
52883529 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
29 35 0.95
30 2 0.05
ACGTcount: A:0.22, C:0.21, G:0.36, T:0.21
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCCTAAAGCGC
Found at i:52891282 original size:29 final size:29
Alignment explanation
Indices: 52891249--52891322 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
52891239 GTGACGAGAT
52891249 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
52891278 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
52891307 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
52891323 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:52891338 original size:29 final size:29
Alignment explanation
Indices: 52891306--52891381 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
52891296 CTGGAAATAT
* *
52891306 ATGGCACTAAGTGTGCGAG-CTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCCT-AAAGCGC
** * *
52891335 ATGGCACTGTGTGTGCGGGCCTAAATCGC
1 ATGGCACTAAGTGTGCGAGCCTAAAGCGC
52891364 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
52891382 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
29 35 0.95
30 2 0.05
ACGTcount: A:0.22, C:0.21, G:0.36, T:0.21
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCCTAAAGCGC
Found at i:52894508 original size:39 final size:39
Alignment explanation
Indices: 52894454--52894615 Score: 254
Period size: 39 Copynumber: 4.2 Consensus size: 39
52894444 TGTGAATGAA
52894454 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
52894493 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
** *
52894532 TGTGCGAGCTATGATATCCGGGCTAAG-CCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
52894570 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
52894610 TGTGCG
1 TGTGCG
52894616 GGTTACCATA
Statistics
Matches: 114, Mismatches: 7, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
38 35 0.31
39 63 0.55
40 16 0.14
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (39 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:52894584 original size:77 final size:79
Alignment explanation
Indices: 52894465--52894615 Score: 261
Period size: 77 Copynumber: 1.9 Consensus size: 79
52894455 GTGCGAATTG
52894465 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGTCCCGAAGGC
52894529 AATTGTGCGAGCTA
66 AATTGTGCGAGCTA
* *
52894543 TGATATCCGGGCTAAG-CCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGTCCCGAAGGC
*
52894607 ATTTGTGCG
66 AATTGTGCG
52894616 GGTTACCATA
Statistics
Matches: 69, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
77 36 0.52
78 33 0.48
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.24
Consensus pattern (79 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGTCCCGAAGGC
AATTGTGCGAGCTA
Found at i:52894631 original size:40 final size:39
Alignment explanation
Indices: 52894454--52894645 Score: 242
Period size: 39 Copynumber: 4.9 Consensus size: 39
52894444 TGTGAATGAA
* *
52894454 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
52894493 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
52894532 TGTGCGAGCTATGATATCCGGGCTAAG-CCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
52894570 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
52894610 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGG
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGG
52894646 TGTTTTGAAC
Statistics
Matches: 137, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
38 35 0.26
39 63 0.46
40 39 0.28
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:52902481 original size:39 final size:39
Alignment explanation
Indices: 52902427--52902589 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
52902417 TGTGAATGAA
52902427 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
52902466 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
** *
52902505 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
52902544 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
52902584 TGTGCG
1 TGTGCG
52902590 GGTTACCATA
Statistics
Matches: 116, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 99 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (39 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:52902605 original size:40 final size:39
Alignment explanation
Indices: 52902427--52902619 Score: 251
Period size: 39 Copynumber: 4.9 Consensus size: 39
52902417 TGTGAATGAA
* *
52902427 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
52902466 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
52902505 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
52902544 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
52902584 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGG
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGG
52902620 TGTTTTGAAC
Statistics
Matches: 139, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 99 0.71
40 40 0.29
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:52905184 original size:43 final size:43
Alignment explanation
Indices: 52905136--52905388 Score: 416
Period size: 43 Copynumber: 5.9 Consensus size: 43
52905126 GCATGAAACT
52905136 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
**
52905179 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCAAGC
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
*
52905222 CGGTGATGTGTATTCGGGGCTTCGTGCCTAGCAGGCTTCGTGC
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
* *
52905265 CGGTGATGTGTATTCGAGCCTTCGTGCCTAGTAGGCTTCGTGC
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
* *
52905308 CGGTGATGTGTATTCGAGCCTTCGTGCCTTGCAGGCTTCGTGC
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
* * *
52905351 CGGTAATGTGTATTCGGGTCTTCGTACCTAGCAGGCTT
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTT
52905389 AATGTCGGTG
Statistics
Matches: 195, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 195 1.00
ACGTcount: A:0.11, C:0.24, G:0.33, T:0.31
Consensus pattern (43 bp):
CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
Found at i:52905590 original size:29 final size:29
Alignment explanation
Indices: 52905557--52905655 Score: 94
Period size: 29 Copynumber: 3.4 Consensus size: 29
52905547 ATGATTAGAG
*
52905557 GCACTGTGTGTGCAAATTCCTTTAACCGA
1 GCACTATGTGTGCAAATTCCTTTAACCGA
* ** **
52905586 GCACTATGTGTGCGAGA-T-CGGTAATTGA
1 GCACTATGTGTGC-AAATTCCTTTAACCGA
* *
52905614 GGCACTGTGTGTGAAAATTCCTTTAACCGA
1 -GCACTATGTGTGCAAATTCCTTTAACCGA
52905644 GCACTATGTGTG
1 GCACTATGTGTG
52905656 TGAGATCGGT
Statistics
Matches: 52, Mismatches: 14, Indels: 8
0.70 0.19 0.11
Matches are distributed among these distances:
28 8 0.15
29 36 0.69
30 8 0.15
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.30
Consensus pattern (29 bp):
GCACTATGTGTGCAAATTCCTTTAACCGA
Found at i:52905676 original size:29 final size:29
Alignment explanation
Indices: 52905586--52905684 Score: 87
Period size: 29 Copynumber: 3.4 Consensus size: 29
52905576 CTTTAACCGA
*
52905586 GCACTATGTGTGCGAGATCGGTAATTGAG
1 GCACTATGTGTGTGAGATCGGTAATTGAG
* ** **
52905615 GCAC--TGTGTGTGAAAATTCCTTTAACCGA-
1 GCACTATGTGTGTG-AGA-T-CGGTAATTGAG
52905644 GCACTATGTGTGTGAGATCGGTAATTGAG
1 GCACTATGTGTGTGAGATCGGTAATTGAG
*
52905673 GCACTGTGTGTG
1 GCACTATGTGTG
52905685 CGAGTTCTTC
Statistics
Matches: 52, Mismatches: 12, Indels: 12
0.68 0.16 0.16
Matches are distributed among these distances:
27 7 0.13
28 8 0.15
29 21 0.40
30 8 0.15
31 8 0.15
ACGTcount: A:0.23, C:0.15, G:0.31, T:0.30
Consensus pattern (29 bp):
GCACTATGTGTGTGAGATCGGTAATTGAG
Found at i:52905741 original size:58 final size:58
Alignment explanation
Indices: 52905554--52905722 Score: 268
Period size: 58 Copynumber: 2.9 Consensus size: 58
52905544 CGAATGATTA
52905554 GAGGCACTGTGTGTGCAAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGTAATT
1 GAGGCACTGTGTGTGCAAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGTAATT
* *
52905612 GAGGCACTGTGTGTGAAAATTCCTTTAACCGAGCACTATGTGTGTGAGATCGGTAATT
1 GAGGCACTGTGTGTGCAAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGTAATT
* * * * *
52905670 GAGGCACTGTGTGTGCGAGTT-CTTCAACCGAGTAGTATGTGTGCGAGATCGGT
1 GAGGCACTGTGTGTGCAAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGT
52905723 TAGTGGGCAC
Statistics
Matches: 102, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
57 28 0.27
58 74 0.73
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (58 bp):
GAGGCACTGTGTGTGCAAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGTAATT
Found at i:52907261 original size:12 final size:13
Alignment explanation
Indices: 52907227--52907266 Score: 55
Period size: 13 Copynumber: 3.0 Consensus size: 13
52907217 TTTTTTTAAG
52907227 TAGTTTATTGATA
1 TAGTTTATTGATA
52907240 TAGTCATTATT-ATA
1 TAGT--TTATTGATA
52907254 TAGTTTATTGATA
1 TAGTTTATTGATA
52907267 AAAATAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
12 5 0.21
13 7 0.29
14 7 0.29
15 5 0.21
ACGTcount: A:0.33, C:0.03, G:0.12, T:0.53
Consensus pattern (13 bp):
TAGTTTATTGATA
Found at i:52909465 original size:39 final size:39
Alignment explanation
Indices: 52909334--52909524 Score: 172
Period size: 40 Copynumber: 4.8 Consensus size: 39
52909324 GGATATAACG
* ** **
52909334 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGG-TTATAGCG
1 ACTCGCAC-AATGCCTTCGGGACTTAGCCCGGATT-TAGTA
* *
52909374 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AATGCCTTCGGGACTTAGCCCGGATTTAGTA
* *
52909414 ACTTGCACAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* * * *
52909452 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AATGCCTTCGGGA-CTTAGCCCGGATTTAGTA
* *
52909492 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAATGCCTTCGGGACTTAGCCCGGA
52909525 CATCATTCGA
Statistics
Matches: 124, Mismatches: 21, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
38 24 0.19
39 21 0.17
40 69 0.56
41 10 0.08
ACGTcount: A:0.23, C:0.29, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:52909469 original size:78 final size:80
Alignment explanation
Indices: 52909374--52909524 Score: 209
Period size: 78 Copynumber: 1.9 Consensus size: 80
52909364 GGTTATAGCG
* * * *
52909374 ACTCGCACGAATGCCTTCGGGA-CTTAACCCGGGTTTAGTAACTT-GCACAATGCCTTCGGG-CT
1 ACTCGCACGAATGCCTTC-GGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACT
52909436 TAGCCCGGATTTATTA
65 TAGCCCGGATTTATTA
** *
52909452 ACTCGCACGAATGCCTTCGGATCCTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTT
1 ACTCGCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTT
52909517 AGCCCGGA
66 AGCCCGGA
52909525 CATCATTCGA
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
77 3 0.05
78 34 0.54
79 15 0.24
80 11 0.17
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.25
Consensus pattern (80 bp):
ACTCGCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTT
AGCCCGGATTTATTA
Found at i:52917147 original size:40 final size:39
Alignment explanation
Indices: 52917050--52917179 Score: 115
Period size: 40 Copynumber: 3.3 Consensus size: 39
52917040 GAATCACGTA
* * * * *
52917050 CCTTCGGAATTTAA-CCGGATATAACGACTCGCTCAAATG
1 CCTTCGGGACTTAACCCGGTTATAGCGACTCGCAC-AATG
*
52917089 CCTTCGGGAC-GAAGCCCGGTTATAGCGACTCGCACGAATG
1 CCTTCGGGACTTAA-CCCGGTTATAGCGACTCGCAC-AATG
** *
52917129 CCTTCGGGACTTAACCCGGGTT-TAGTAACTTGCACAATG
1 CCTTCGGGACTTAACCC-GGTTATAGCGACTCGCACAATG
52917168 CCTTCGGG-CTTA
1 CCTTCGGGACTTA
52917180 GCCTGGATTT
Statistics
Matches: 76, Mismatches: 11, Indels: 9
0.79 0.11 0.09
Matches are distributed among these distances:
38 6 0.08
39 20 0.26
40 44 0.58
41 6 0.08
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCTTCGGGACTTAACCCGGTTATAGCGACTCGCACAATG
Found at i:52917209 original size:39 final size:40
Alignment explanation
Indices: 52917076--52917213 Score: 131
Period size: 40 Copynumber: 3.5 Consensus size: 40
52917066 GGATATAACG
* * * **
52917076 ACTCGCTCAAATGCCTTCGGGAC-GAAGCCCGG-TTATAGCG
1 ACTCGCACGAATGCCTTCGGGACTTAA-CCCGGATT-TAGTA
*
52917116 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAGTA
* * * *
52917156 ACTTGCAC-AATGCCTTCGGG-CTTAGCCTGGATTTATTA
1 ACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAGTA
*
52917194 ACTCGCACGACTGCCTTCGG
1 ACTCGCACGAATGCCTTCGG
52917214 ATCCTAGTCC
Statistics
Matches: 83, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
38 21 0.25
39 22 0.27
40 36 0.43
41 4 0.05
ACGTcount: A:0.21, C:0.29, G:0.25, T:0.25
Consensus pattern (40 bp):
ACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAGTA
Found at i:52922014 original size:29 final size:29
Alignment explanation
Indices: 52921945--52922037 Score: 161
Period size: 29 Copynumber: 3.2 Consensus size: 29
52921935 GTGACGAGAT
52921945 TGGCACTAAGTGTGCATGCTGGAAATA-A
1 TGGCACTAAGTGTGCATGCTGGAAATATA
52921973 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
52922002 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
52922031 CGGCACT
1 TGGCACT
52922038 GGGTGTGCGA
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
28 27 0.44
29 35 0.56
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:52922064 original size:58 final size:57
Alignment explanation
Indices: 52921941--52922074 Score: 157
Period size: 58 Copynumber: 2.4 Consensus size: 57
52921931 TACGGTGACG
*
52921941 AGAT-TGGCACTAAGTGTGCATGCTGGAAATAATGGCACTAAGTGTGCATGCTGGAA
1 AGATATGGCACTAAGTGTGCATGCTGGAAATAATGGCACTAAGTGTGCATGCTCGAA
* **
52921997 ATATATGGCACTAAGTGTGCATGCTGGAAA-AATACGGCACTGGGTGTGCGA-GCTCGAA
1 AGATATGGCACTAAGTGTGCATGCTGGAAATAAT--GGCACTAAGTGTGC-ATGCTCGAA
* * *
52922055 GGGTATGGCACTATGTGTGC
1 AGATATGGCACTAAGTGTGC
52922075 GGGCTTAAAT
Statistics
Matches: 66, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
56 6 0.09
57 25 0.38
58 34 0.52
59 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.32, T:0.25
Consensus pattern (57 bp):
AGATATGGCACTAAGTGTGCATGCTGGAAATAATGGCACTAAGTGTGCATGCTCGAA
Found at i:52929943 original size:30 final size:29
Alignment explanation
Indices: 52929871--52929935 Score: 103
Period size: 29 Copynumber: 2.2 Consensus size: 29
52929861 TGACGAGATT
* *
52929871 GGCACTAAGTGTGCATGCTGGAAATATAT
1 GGCACTAAGTGTGCATGCTGGAAAAATAC
52929900 GGCACTAAGTGTGCATGCTGGAAAAAATAC
1 GGCACTAAGTGTGCATGCTGG-AAAAATAC
52929930 GGCACT
1 GGCACT
52929936 GGGTGTGCGA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
29 21 0.64
30 12 0.36
ACGTcount: A:0.32, C:0.17, G:0.28, T:0.23
Consensus pattern (29 bp):
GGCACTAAGTGTGCATGCTGGAAAAATAC
Found at i:52934093 original size:24 final size:24
Alignment explanation
Indices: 52934061--52934147 Score: 165
Period size: 24 Copynumber: 3.6 Consensus size: 24
52934051 AATCTCAAAT
52934061 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
52934085 GCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATG
52934109 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
52934133 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
52934148 ACATAATAAG
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 61 1.00
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.36
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:52934113 original size:48 final size:48
Alignment explanation
Indices: 52934061--52934169 Score: 175
Period size: 48 Copynumber: 2.3 Consensus size: 48
52934051 AATCTCAAAT
** *
52934061 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCG-ATTTACTATA
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATA-A
52934109 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
52934157 GCACTATGTGTGC
1 GCACTATGTGTGC
52934170 AACGTTTGGT
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
48 52 0.91
49 5 0.09
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (48 bp):
GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
Found at i:52934160 original size:24 final size:24
Alignment explanation
Indices: 52934061--52934169 Score: 157
Period size: 24 Copynumber: 4.5 Consensus size: 24
52934051 AATCTCAAAT
*
52934061 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATA
52934085 GCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATA
*
52934109 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATA
** *
52934133 GCACTATGTGTGCGAACATAATA-A
1 GCACTATGTGTGCG-ATTTACTATA
52934157 GCACTATGTGTGC
1 GCACTATGTGTGC
52934170 AACGTTTGGT
Statistics
Matches: 78, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
24 73 0.94
25 5 0.06
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATA
Found at i:52941868 original size:24 final size:24
Alignment explanation
Indices: 52941836--52941898 Score: 126
Period size: 24 Copynumber: 2.6 Consensus size: 24
52941826 AATCTCAAAT
52941836 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
52941860 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
52941884 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
52941899 ACATAATAAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.21, C:0.17, G:0.27, T:0.35
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:52944395 original size:46 final size:45
Alignment explanation
Indices: 52944296--52944452 Score: 160
Period size: 46 Copynumber: 3.4 Consensus size: 45
52944286 GTCAGGTGCT
* ** * *
52944296 GATGTCAT-TCCCAGACATGGTCTTACACTGAC-ACATCTCGTAGCA
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTATGTCTCGAAGCC
52944341 GATGCATGTCCCAGACATGTCTTACACTGGCTTATGTCTCGAAGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGC-TATGTCTCGAAGCC
* *
52944387 GACGCATGTCCCAGACATGTCTTACACTAG-TACTCGTCTC-AATGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTA-T-GTCTCGAA-GCC
52944433 GATGCCATGTCCCAGACATG
1 GATG-CATGTCCCAGACATG
52944453 GTCATACATT
Statistics
Matches: 97, Mismatches: 8, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
44 17 0.18
45 17 0.18
46 48 0.49
47 15 0.15
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTATGTCTCGAAGCC
Found at i:52947545 original size:28 final size:29
Alignment explanation
Indices: 52947513--52947599 Score: 115
Period size: 29 Copynumber: 3.0 Consensus size: 29
52947503 TACATGTATC
52947513 TGGCCCATTAAGCCC-AATCATATTCATA
1 TGGCCCATTAAGCCCAAATCATATTCATA
* *
52947541 TGGCCCATTATGCCCAAATCATCTGT-ATA
1 TGGCCCATTAAGCCCAAATCATAT-TCATA
* *
52947570 TGGCCCATTAGGCCCAAATCACATTCATA
1 TGGCCCATTAAGCCCAAATCATATTCATA
52947599 T
1 T
52947600 TCATGCTTAT
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
28 15 0.29
29 35 0.69
30 1 0.02
ACGTcount: A:0.30, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
TGGCCCATTAAGCCCAAATCATATTCATA
Found at i:52962498 original size:24 final size:23
Alignment explanation
Indices: 52962466--52962574 Score: 137
Period size: 24 Copynumber: 4.6 Consensus size: 23
52962456 ACCAAACGTT
* **
52962466 GCACACATAGTGCTTATTATGTTC
1 GCACACATAGTGCTTAGTA-AATC
*
52962490 GCACACATAGTGCCATAGTAAATC
1 GCACACATAGTG-CTTAGTAAATC
52962514 GCACACATAGTGCTATAGTAAATC
1 GCACACATAGTGCT-TAGTAAATC
*
52962538 GCACACATAGTGCCATAGTAAATC
1 GCACACATAGTG-CTTAGTAAATC
52962562 GCACACATAGTGC
1 GCACACATAGTGC
52962575 ATTTGAGATT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
23 2 0.03
24 68 0.89
25 6 0.08
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (23 bp):
GCACACATAGTGCTTAGTAAATC
Found at i:52962540 original size:48 final size:48
Alignment explanation
Indices: 52962466--52962574 Score: 175
Period size: 48 Copynumber: 2.3 Consensus size: 48
52962456 ACCAAACGTT
* **
52962466 GCACACATAGTGCTTATTATGTTCGCACACATAGTGCCATAGTAAATC
1 GCACACATAGTGCTTAGTATAATCGCACACATAGTGCCATAGTAAATC
52962514 GCACACATAGTGCTATAGTA-AATCGCACACATAGTGCCATAGTAAATC
1 GCACACATAGTGCT-TAGTATAATCGCACACATAGTGCCATAGTAAATC
52962562 GCACACATAGTGC
1 GCACACATAGTGC
52962575 ATTTGAGATT
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
48 53 0.93
49 4 0.07
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (48 bp):
GCACACATAGTGCTTAGTATAATCGCACACATAGTGCCATAGTAAATC
Found at i:52970381 original size:24 final size:23
Alignment explanation
Indices: 52970349--52970457 Score: 137
Period size: 24 Copynumber: 4.6 Consensus size: 23
52970339 ACCAAACGTT
* **
52970349 GCACACATAGTGCTTATTATGTTC
1 GCACACATAGTGCTTAGTA-AATC
*
52970373 GCACACATAGTGCCATAGTAAATC
1 GCACACATAGTG-CTTAGTAAATC
52970397 GCACACATAGTGCTATAGTAAATC
1 GCACACATAGTGCT-TAGTAAATC
*
52970421 GCACACATAGTGCCATAGTAAATC
1 GCACACATAGTG-CTTAGTAAATC
52970445 GCACACATAGTGC
1 GCACACATAGTGC
52970458 ATTTGAGATT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
23 2 0.03
24 68 0.89
25 6 0.08
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (23 bp):
GCACACATAGTGCTTAGTAAATC
Found at i:52970423 original size:48 final size:48
Alignment explanation
Indices: 52970349--52970457 Score: 175
Period size: 48 Copynumber: 2.3 Consensus size: 48
52970339 ACCAAACGTT
* **
52970349 GCACACATAGTGCTTATTATGTTCGCACACATAGTGCCATAGTAAATC
1 GCACACATAGTGCTTAGTATAATCGCACACATAGTGCCATAGTAAATC
52970397 GCACACATAGTGCTATAGTA-AATCGCACACATAGTGCCATAGTAAATC
1 GCACACATAGTGCT-TAGTATAATCGCACACATAGTGCCATAGTAAATC
52970445 GCACACATAGTGC
1 GCACACATAGTGC
52970458 ATTTGAGATT
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
48 53 0.93
49 4 0.07
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (48 bp):
GCACACATAGTGCTTAGTATAATCGCACACATAGTGCCATAGTAAATC
Found at i:52975712 original size:28 final size:29
Alignment explanation
Indices: 52975668--52975782 Score: 121
Period size: 29 Copynumber: 4.0 Consensus size: 29
52975658 TACCTATATC
*
52975668 TGGCCCATTAAGG-CC-AATCATATTCATA
1 TGGCCCATT-AGGCCCAAATCACATTCATA
*
52975696 TGGCCCATTAGGCCCAAATCACCTAT-ATA
1 TGGCCCATTAGGCCCAAATCACAT-TCATA
* *
52975725 TGACCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
***
52975754 TGGCATGTTAGGCCC-AATCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
52975782 T
1 T
52975783 TCATGCTCAC
Statistics
Matches: 74, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
27 3 0.04
28 25 0.34
29 45 0.61
30 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.28
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTCATA
Found at i:52975723 original size:57 final size:57
Alignment explanation
Indices: 52975659--52975774 Score: 137
Period size: 57 Copynumber: 2.0 Consensus size: 57
52975649 AAATTCACAT
* * * *
52975659 ACCTATATCTGGCCCATTAAGG-CC-AATCATATTCATATGGCCCATTAGGCCCAAATC
1 ACCTATATATGACCCATT-AGGCCCAAATCACATTCATATGGCACATTAGGCCC-AATC
* **
52975716 ACCTATATATGACCCATTAGGCCCAAATCACATTTATATGGCATGTTAGGCCCAATC
1 ACCTATATATGACCCATTAGGCCCAAATCACATTCATATGGCACATTAGGCCCAATC
52975773 AC
1 AC
52975775 ATTCATATTC
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
56 3 0.06
57 24 0.48
58 23 0.46
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (57 bp):
ACCTATATATGACCCATTAGGCCCAAATCACATTCATATGGCACATTAGGCCCAATC
Found at i:52976020 original size:24 final size:24
Alignment explanation
Indices: 52975993--52976043 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
52975983 GTAGCCAAAC
52975993 TTTCGACT-TTTTGACATTTCGGCT
1 TTTC-ACTATTTTGACATTTCGGCT
* * *
52976017 TTTCAGTATTTTGGCATTTTGGCT
1 TTTCACTATTTTGACATTTCGGCT
52976041 TTT
1 TTT
52976044 GCTGATTCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 2 0.09
24 21 0.91
ACGTcount: A:0.12, C:0.16, G:0.18, T:0.55
Consensus pattern (24 bp):
TTTCACTATTTTGACATTTCGGCT
Found at i:52979025 original size:40 final size:40
Alignment explanation
Indices: 52978971--52979074 Score: 172
Period size: 40 Copynumber: 2.6 Consensus size: 40
52978961 GCTACTCGCT
* *
52978971 CAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGTAC
1 CAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCAC
*
52979011 CAATGCCTTTGGGACTTAGCCCGGATATAGTAACTCGCAC
1 CAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCAC
*
52979051 AAATGCCTTCGGGACTTAGCCCGG
1 CAATGCCTTCGGGACTTAGCCCGG
52979075 TTATCATCCA
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 59 1.00
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCAC
Found at i:52987159 original size:40 final size:39
Alignment explanation
Indices: 52987031--52987245 Score: 276
Period size: 39 Copynumber: 5.5 Consensus size: 39
52987021 AAGCCAAGTA
* * *
52987031 CCTTCGGGATTTA-ACCGGATATAGCTACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TACTCGCACAAATG
* * *
52987069 CCTTCGGGACATAGCCCGGATATAGTAAC-CACACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGT-ACTCGCACAAATG
52987108 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGT-ACTCGCACAAATG
52987148 CCTTCGGGACTTAGCCCGGATATAGTACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTACTCGCACAAATG
** *
52987187 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAACGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGT-ACTCGCACAAATG
52987227 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
52987246 TTATCATCCA
Statistics
Matches: 160, Mismatches: 11, Indels: 10
0.88 0.06 0.06
Matches are distributed among these distances:
38 16 0.10
39 81 0.51
40 63 0.39
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCCGGATATAGTACTCGCACAAATG
Found at i:52987163 original size:79 final size:78
Alignment explanation
Indices: 52987031--52987245 Score: 276
Period size: 79 Copynumber: 2.7 Consensus size: 78
52987021 AAGCCAAGTA
* * * *
52987031 CCTTCGGGATTTA-ACCGGATATAGCTACTCGCTC-AATGCCTTCGGGACATAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAG-TACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
*
52987094 TAAC-CACACCAATG
65 T-ACTCACACAAATG
52987108 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
*
52987173 TACTCGCACAAATG
65 TACTCACACAAATG
** *
52987187 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAACGCAAATGCCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGGATA-TAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
52987246 TTATCATCCA
Statistics
Matches: 123, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
77 13 0.11
78 20 0.16
79 90 0.73
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (78 bp):
CCTTCGGGACTTAGCCCGGATATAGTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
ACTCACACAAATG
Found at i:52990034 original size:21 final size:22
Alignment explanation
Indices: 52990009--52990056 Score: 62
Period size: 25 Copynumber: 2.1 Consensus size: 22
52989999 GTCAGCTTAA
52990009 GACTCATG-AGGCGAATTATCC
1 GACTCATGCAGGCGAATTATCC
52990030 GACTCATGACCTAGGCGAATTATCC
1 GACTCATG--C-AGGCGAATTATCC
52990055 GA
1 GA
52990057 ATCTGAGTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 8 0.35
25 15 0.65
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (22 bp):
GACTCATGCAGGCGAATTATCC
Found at i:52995824 original size:38 final size:39
Alignment explanation
Indices: 52995679--52995840 Score: 245
Period size: 39 Copynumber: 4.2 Consensus size: 39
52995669 TATGGTAACC
** *
52995679 CGCACAAACGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
52995719 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
52995758 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
52995797 TGCACAATTGCCTT-GGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
52995835 CGCACA
1 CGCACA
52995841 TTCATTCACA
Statistics
Matches: 112, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
38 28 0.25
39 68 0.61
40 16 0.14
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:52999233 original size:67 final size:65
Alignment explanation
Indices: 52999134--52999279 Score: 181
Period size: 67 Copynumber: 2.2 Consensus size: 65
52999124 TAGTACCACC
* * * * *
52999134 CATGTGACCTAGC--CATTTTATCTCGTAGCTCTCTTGTCTAGATGGTGTCCTTCACCTGGAGCT
1 CATGTGACCTAGCTACATTTTATCCCGTAGCTCTCTTGTCTACATGGTATACAT--CCTGGAGC-
52999197 ACA
63 ACA
* *
52999200 CATGTGACCTAGCTACA-TTTATCCCGTAGCTCTCTTGTCTACATGGTATACATCCTGTATCACA
1 CATGTGACCTAGCTACATTTTATCCCGTAGCTCTCTTGTCTACATGGTATACATCCTGGAGCACA
52999264 CATGTGACCTAGCTAC
1 CATGTGACCTAGCTAC
52999280 CACATAGTAT
Statistics
Matches: 71, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
64 19 0.27
65 6 0.08
66 13 0.18
67 31 0.44
68 2 0.03
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (65 bp):
CATGTGACCTAGCTACATTTTATCCCGTAGCTCTCTTGTCTACATGGTATACATCCTGGAGCACA
Found at i:53003088 original size:9 final size:9
Alignment explanation
Indices: 53003074--53003110 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
53003064 TATAGTTCGA
53003074 TATTCGAAT
1 TATTCGAAT
53003083 TATTCGAAT
1 TATTCGAAT
*
53003092 TATTCGAGT
1 TATTCGAAT
53003101 TATTCGAAT
1 TATTCGAAT
53003110 T
1 T
53003111 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:53003841 original size:11 final size:11
Alignment explanation
Indices: 53003825--53003849 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
53003815 TCTATACATG
53003825 TAAATTTAATA
1 TAAATTTAATA
53003836 TAAATTTAATA
1 TAAATTTAATA
53003847 TAA
1 TAA
53003850 TTCATACTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
TAAATTTAATA
Found at i:53007135 original size:55 final size:53
Alignment explanation
Indices: 53007010--53007204 Score: 147
Period size: 55 Copynumber: 3.6 Consensus size: 53
53007000 AGGGTTTAAG
* * * * * * ** * *
53007010 GATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTACAAGGCAAG
1 GATACCATGTAAGACCATGTCAAGACATGGCAATGATAA-ATACATAAGGCAAA
* * ** *
53007064 GAAATCATGTAAGACCATGTCAAGACATGGCTTTGATAAACTACTATAGGGCAAA
1 GATACCATGTAAGACCATGTCAAGACATGGCAATGATAAA-TAC-ATAAGGCAAA
* * * * * * * *
53007119 GATCCCATGTAAGACCATGCCAAGACTTGACAATGGTGAATTCATAAGGCAAG
1 GATACCATGTAAGACCATGTCAAGACATGGCAATGATAAATACATAAGGCAAA
*
53007172 GATACCACGTAAGACCATGTCAAGACATGGCAA
1 GATACCATGTAAGACCATGTCAAGACATGGCAA
53007205 AGGTAAGTTT
Statistics
Matches: 108, Mismatches: 31, Indels: 5
0.75 0.22 0.03
Matches are distributed among these distances:
53 36 0.33
54 35 0.32
55 37 0.34
ACGTcount: A:0.37, C:0.19, G:0.23, T:0.21
Consensus pattern (53 bp):
GATACCATGTAAGACCATGTCAAGACATGGCAATGATAAATACATAAGGCAAA
Found at i:53010063 original size:40 final size:40
Alignment explanation
Indices: 53010004--53010172 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
53009994 CGGGACTTTA
* * *
53010004 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
53010044 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
53010084 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
53010124 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
53010164 CCCGGATAT
1 CCCGGATAT
53010173 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:53018161 original size:39 final size:39
Alignment explanation
Indices: 53018081--53018223 Score: 148
Period size: 40 Copynumber: 3.7 Consensus size: 39
53018071 CCGCACCAAG
* * * * * *
53018081 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTTGCAC-AAT
*
53018121 GCCTTCGGGTCTTAGCCCGGATTTAAC-ACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTTGCAC-AAT
* *
53018160 GCCTTC-GGTCTTAG-CCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTTGCACAA-T
*
53018198 GCCTTCGGGTCTTAACCCGGATATAA
1 GCCTTCGGGTCTTAGCCCGGATATAA
53018224 TTTTCAGCAT
Statistics
Matches: 87, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
37 11 0.13
38 22 0.25
39 23 0.26
40 31 0.36
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (39 bp):
GCCTTCGGGTCTTAGCCCGGATATAACTACTTGCACAAT
Found at i:53018201 original size:38 final size:37
Alignment explanation
Indices: 53018113--53018223 Score: 125
Period size: 38 Copynumber: 2.9 Consensus size: 37
53018103 ATCACGATTT
* *
53018113 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACACTT
1 GCAC-AATGCCTTCGGGTCTTAG-CCGGATATAACACTA
*
53018152 GCACGAATGCCTTC-GGTCTTAGCCGGATATAGCTACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCGGATATAAC-ACTA
*
53018190 GCACAATTGCCTTCGGGTCTTAACCCGGATATAA
1 GCACAA-TGCCTTCGGGTCTT-AGCCGGATATAA
53018224 TTTTCAGCAT
Statistics
Matches: 62, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
37 11 0.18
38 22 0.35
39 19 0.31
40 10 0.16
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (37 bp):
GCACAATGCCTTCGGGTCTTAGCCGGATATAACACTA
Found at i:53023547 original size:40 final size:40
Alignment explanation
Indices: 53023481--53023631 Score: 146
Period size: 40 Copynumber: 3.8 Consensus size: 40
53023471 AAATTGAATG
* * *
53023481 ATATCCGGGCTAA-TCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
* * ****
53023520 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
* *
53023560 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GAAATT
* *
53023600 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
53023632 ACATGGTTAT
Statistics
Matches: 89, Mismatches: 19, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
39 15 0.17
40 72 0.81
41 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
Found at i:53023645 original size:40 final size:40
Alignment explanation
Indices: 53023518--53023647 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
53023508 ATGCTGGAAA
* * * *
53023518 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
53023558 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
53023598 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
53023638 TTATATCCGG
1 TTATATCCGG
53023648 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:53027427 original size:40 final size:40
Alignment explanation
Indices: 53027342--53027492 Score: 125
Period size: 40 Copynumber: 3.8 Consensus size: 40
53027332 AATTGAATGA
* * *
53027342 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
53027382 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
* *
53027423 -ATCCGGGCTGAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
53027462 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
53027493 ACATGGTTAT
Statistics
Matches: 90, Mismatches: 13, Indels: 16
0.76 0.11 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.06
40 77 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:53027506 original size:40 final size:40
Alignment explanation
Indices: 53027379--53027508 Score: 129
Period size: 40 Copynumber: 3.2 Consensus size: 40
53027369 ATGCTGGAAA
* * * *
53027379 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * * **
53027419 CTACATCCGGGCTGAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
53027459 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
53027499 TTATATCCGG
1 TTATATCCGG
53027509 TTTATTCCGA
Statistics
Matches: 69, Mismatches: 19, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
39 2 0.03
40 67 0.97
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:53029797 original size:16 final size:16
Alignment explanation
Indices: 53029776--53029832 Score: 75
Period size: 16 Copynumber: 3.7 Consensus size: 16
53029766 ACTTATCAAA
53029776 AATAAATTATTAATAT
1 AATAAATTATTAATAT
53029792 AATAAATTATT--T-T
1 AATAAATTATTAATAT
53029805 AATAAATTATTTAATAT
1 AATAAATTA-TTAATAT
*
53029822 TATAAATTATT
1 AATAAATTATT
53029833 TTAATAATAA
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
13 10 0.28
14 3 0.08
16 14 0.39
17 9 0.25
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
AATAAATTATTAATAT
Found at i:53029814 original size:13 final size:14
Alignment explanation
Indices: 53029776--53029839 Score: 69
Period size: 13 Copynumber: 4.4 Consensus size: 14
53029766 ACTTATCAAA
53029776 AATAAATTATTAATAT
1 AATAAATTATT--TAT
53029792 AATAAATTATTT-T
1 AATAAATTATTTAT
53029805 AATAAATTATTTAAT
1 AATAAATTATTT-AT
53029820 ATTATAAATTATTT-T
1 A--ATAAATTATTTAT
53029835 AATAA
1 AATAA
53029840 TAAAATTTCG
Statistics
Matches: 44, Mismatches: 0, Indels: 11
0.80 0.00 0.20
Matches are distributed among these distances:
13 17 0.39
14 1 0.02
15 4 0.09
16 11 0.25
17 11 0.25
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
AATAAATTATTTAT
Found at i:53029821 original size:30 final size:29
Alignment explanation
Indices: 53029776--53029839 Score: 110
Period size: 30 Copynumber: 2.2 Consensus size: 29
53029766 ACTTATCAAA
53029776 AATAAATTATTAATATAATAAATTATTTT
1 AATAAATTATTAATATAATAAATTATTTT
*
53029805 AATAAATTATTTAATATTATAAATTATTTT
1 AATAAATTA-TTAATATAATAAATTATTTT
53029835 AATAA
1 AATAA
53029840 TAAAATTTCG
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 9 0.27
30 24 0.73
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (29 bp):
AATAAATTATTAATATAATAAATTATTTT
Found at i:53029845 original size:17 final size:16
Alignment explanation
Indices: 53029779--53029846 Score: 63
Period size: 13 Copynumber: 4.3 Consensus size: 16
53029769 TATCAAAAAT
*
53029779 AAATTATTAATATAAT-
1 AAATTATTTA-ATAATA
53029795 AAATTATTT--TAAT-
1 AAATTATTTAATAATA
*
53029808 AAATTATTTAATATTA
1 AAATTATTTAATAATA
53029824 TAAATTATTTTAATAATA
1 -AAATTA-TTTAATAATA
53029842 AAATT
1 AAATT
53029847 TCGCAATAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
13 13 0.30
15 3 0.07
16 8 0.18
17 11 0.25
18 9 0.20
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
AAATTATTTAATAATA
Found at i:53031424 original size:40 final size:41
Alignment explanation
Indices: 53031333--53031429 Score: 96
Period size: 39 Copynumber: 2.4 Consensus size: 41
53031323 AAATACACAC
* * *
53031333 TACTATATATAATAATAATAAATATAGAAATACAAAAAGCAA
1 TACTATATATAAAAATATTAAATAAAGAAATACAAAAA-CAA
*
53031375 -A-TATA-ATAAAAATATTAAATTAAAGTAATA-AAAAA-AA
1 TACTATATATAAAAATATTAAA-TAAAGAAATACAAAAACAA
*
53031412 TACTATATATAAATATAT
1 TACTATATATAAAAATAT
53031430 ATATATATAT
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
37 2 0.04
38 1 0.02
39 21 0.46
40 21 0.46
41 1 0.02
ACGTcount: A:0.63, C:0.04, G:0.03, T:0.30
Consensus pattern (41 bp):
TACTATATATAAAAATATTAAATAAAGAAATACAAAAACAA
Found at i:53031432 original size:12 final size:12
Alignment explanation
Indices: 53031409--53031452 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
53031399 GTAATAAAAA
53031409 AAATACTATATAT
1 AAATA-TATATAT
53031422 AAATATATATAT
1 AAATATATATAT
* * *
53031434 ATATATACATAA
1 AAATATATATAT
53031446 AAATATA
1 AAATATA
53031453 CACTAATATA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
12 22 0.81
13 5 0.19
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (12 bp):
AAATATATATAT
Found at i:53031687 original size:3 final size:3
Alignment explanation
Indices: 53031679--53031754 Score: 54
Period size: 3 Copynumber: 25.3 Consensus size: 3
53031669 GCATATATAT
53031679 ATA ATA ATA AT- ATA ATA AT- ATA TATA CATGA GA-A ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA -ATA -AT-A -ATA ATA ATA ATA ATA
* *
53031725 AT- ATAA ATA GTA AAA ATA ATA A-A ATA ATA A
1 ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA A
53031755 AACAAAGCTC
Statistics
Matches: 59, Mismatches: 6, Indels: 16
0.73 0.07 0.20
Matches are distributed among these distances:
2 9 0.15
3 41 0.69
4 7 0.12
5 2 0.03
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:53031703 original size:29 final size:28
Alignment explanation
Indices: 53031671--53031754 Score: 82
Period size: 29 Copynumber: 3.0 Consensus size: 28
53031661 TGGAGAGGGC
53031671 ATATATATAT-AATAATAATATAATAAT
1 ATATATATATAAATAATAATATAATAAT
* *
53031698 ATATATACATGAGA-AATAATAATAATAAT
1 ATATATATAT-AAATAATAAT-ATAATAAT
* * *
53031727 ATAAATAGTAAAAATAATAAAATAATAA
1 ATATATA-TATAAATAATAATATAATAA
53031755 AACAAAGCTC
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
27 9 0.20
28 6 0.13
29 24 0.53
30 6 0.13
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.32
Consensus pattern (28 bp):
ATATATATATAAATAATAATATAATAAT
Found at i:53031742 original size:18 final size:17
Alignment explanation
Indices: 53031679--53031756 Score: 66
Period size: 18 Copynumber: 4.4 Consensus size: 17
53031669 GCATATATAT
* *
53031679 ATAATAATAATATAATA
1 ATAAAAATAATAAAATA
* *
53031696 ATATATATACATGAGAAATA
1 ATAAAAATA-AT-A-AAATA
*
53031716 ATAATAATAATATAAATA
1 ATAAAAATAATA-AAATA
*
53031734 GTAAAAATAATAAAATA
1 ATAAAAATAATAAAATA
53031751 ATAAAA
1 ATAAAA
53031757 CAAAGCTCTC
Statistics
Matches: 47, Mismatches: 11, Indels: 6
0.73 0.17 0.09
Matches are distributed among these distances:
17 16 0.34
18 18 0.38
19 3 0.06
20 10 0.21
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.29
Consensus pattern (17 bp):
ATAAAAATAATAAAATA
Found at i:53032106 original size:18 final size:19
Alignment explanation
Indices: 53032078--53032122 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
53032068 TTCTTTCCAA
53032078 AAAACAAAAAAACACCTCC
1 AAAACAAAAAAACACCTCC
* *
53032097 AAAA-AAAAAACCTCCTCC
1 AAAACAAAAAAACACCTCC
53032115 AAAACAAA
1 AAAACAAA
53032123 GAACAATCCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 16 0.70
19 7 0.30
ACGTcount: A:0.64, C:0.29, G:0.00, T:0.07
Consensus pattern (19 bp):
AAAACAAAAAAACACCTCC
Found at i:53032122 original size:23 final size:22
Alignment explanation
Indices: 53032096--53032140 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
53032086 AAAACACCTC
53032096 CAAAAAAAAAACCTCCTCCAAAA
1 CAAAAAAAAAACCT-CTCCAAAA
* * *
53032119 CAAAGAACAATCCTCTCCAAAA
1 CAAAAAAAAAACCTCTCCAAAA
53032141 AACCAAAACC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.56, C:0.31, G:0.02, T:0.11
Consensus pattern (22 bp):
CAAAAAAAAAACCTCTCCAAAA
Found at i:53032231 original size:19 final size:19
Alignment explanation
Indices: 53032207--53032255 Score: 55
Period size: 22 Copynumber: 2.4 Consensus size: 19
53032197 GGAGTGGTTG
53032207 GGGTGGT-TTAGGTGGCCAA
1 GGGTGGTGTT-GGTGGCCAA
53032226 GGGTGGTGGAGTTGGTGGCCAA
1 GGGTGGT---GTTGGTGGCCAA
53032248 GGGTGGTG
1 GGGTGGTG
53032256 GCCAACAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
19 8 0.31
22 16 0.62
23 2 0.08
ACGTcount: A:0.12, C:0.08, G:0.55, T:0.24
Consensus pattern (19 bp):
GGGTGGTGTTGGTGGCCAA
Found at i:53032256 original size:13 final size:13
Alignment explanation
Indices: 53032217--53032260 Score: 51
Period size: 13 Copynumber: 3.7 Consensus size: 13
53032207 GGGTGGTTTA
53032217 GGTGGCCAAGGGT
1 GGTGGCCAAGGGT
*
53032230 GGTGG---A-GTT
1 GGTGGCCAAGGGT
53032239 GGTGGCCAAGGGT
1 GGTGGCCAAGGGT
53032252 GGTGGCCAA
1 GGTGGCCAA
53032261 CAAAGGTGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 8
0.71 0.06 0.23
Matches are distributed among these distances:
9 7 0.28
10 1 0.04
12 1 0.04
13 16 0.64
ACGTcount: A:0.16, C:0.14, G:0.52, T:0.18
Consensus pattern (13 bp):
GGTGGCCAAGGGT
Found at i:53032681 original size:44 final size:44
Alignment explanation
Indices: 53032615--53033478 Score: 643
Period size: 44 Copynumber: 19.8 Consensus size: 44
53032605 ATCTTCACTG
* * * *
53032615 TAAGCACAGGAATGTCAGATCTGCTATCTTCGATCCGTTCCCTA
1 TAAGCACAGGGATGCCAAATCTGCTATCTTCGATCTGTTCCCTA
* * *
53032659 TAAGCACAGGGATGCCAAATCTG-TGTTTTC-AACTTGTTCCCTA
1 TAAGCACAGGGATGCCAAATCTGCTATCTTCGATC-TGTTCCCTA
** * *
53032702 TAAGCACAGGGATGCC---TGCTGAAATCTTTTCTGATCTGTTCACTG
1 TAAGCACAGGGATGCCAAAT-CTGCTATC--TTC-GATCTGTTCCCTA
* * * *
53032747 TAAGCACAGGAATGTCAGAT-TGCTATCTTCGATCCG-T-CCTA
1 TAAGCACAGGGATGCCAAATCTGCTATCTTCGATCTGTTCCCTA
* * * *
53032788 TAAGCACAGGGATGCC-AATCTGATGTTTTC-AACTTGTT-CCTA
1 TAAGCACAGGGATGCCAAATCTGCTATCTTCGATC-TGTTCCCTA
* * * *
53032830 TAAGCACAGGGATGCCAAATCTGATGTTTTC-AACTTGTTCCCTA
1 TAAGCACAGGGATGCCAAATCTGCTATCTTCGATC-TGTTCCCTA
** * * *
53032874 TAAGCACAGGGATGCC--ATGCTGAAATCTTTGATCTGCTTCACTG
1 TAAGCACAGGGATGCCAAAT-CTGCTATCTTCGATCTG-TTCCCTA
* * * *
53032918 TAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTA
1 TAAGCACAGGGATGCCAAATCTGCTATCTTCGATCTGTTCCCTA
* * *
53032962 TAAGCACAGGGATGCCAAATCTGCTGTTTTC-AACTTGTTCCCTA
1 TAAGCACAGGGATGCCAAATCTGCTATCTTCGATC-TGTTCCCTA
** * *
53033006 TAAGCAC-GGGATGCC--ATGCTGAAATCTTCGATCTGCTTCACTG
1 TAAGCACAGGGATGCCAAAT-CTGCTATCTTCGATCTG-TTCCCTA
* * *
53033049 TAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTA
1 TAAGCACAGGGATGCCAAATCTGCTATCTTCGATCTGTTCCCTA
* * * *
53033093 TAAGCACAGGGATGCCAAATCTGATGTTTTC-AACTGTTCCCTA
1 TAAGCACAGGGATGCCAAATCTGCTATCTTCGATCTGTTCCCTA
* * * *
53033136 TAAGCACAGGGATGCC--ATGCTG-AATCTTTGATCTGCTTCACTG
1 TAAGCACAGGGATGCCAAAT-CTGCTATCTTCGATCTG-TTCCCTA
* * * *
53033179 TAAGCACAGGAATGTC-AGTCTGCTATCTTCGATTTGTTCCCTA
1 TAAGCACAGGGATGCCAAATCTGCTATCTTCGATCTGTTCCCTA
* * *
53033222 TAAGCACAGGGATGCCAAATCTGCTGTTTTC-AACTTGTTCCCTA
1 TAAGCACAGGGATGCCAAATCTGCTATCTTCGATC-TGTTCCCTA
** * * *
53033266 TAAGCACAGGGATGCC--ATGCTGAAATCTTTGATCTGCTTCACTG
1 TAAGCACAGGGATGCCAAAT-CTGCTATCTTCGATCTG-TTCCCTA
* * * *
53033310 TAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTA
1 TAAGCACAGGGATGCCAAATCTGCTATCTTCGATCTGTTCCCTA
* * *
53033354 TAAGCACAGGGATGCCAAATCTGCTGTTTTC-AACTTGTTCCCTA
1 TAAGCACAGGGATGCCAAATCTGCTATCTTCGATC-TGTTCCCTA
** * * *
53033398 TAAGCACAGGGATGCC--ATGCTGAAATCTTGGATCTGCTTCACTG
1 TAAGCACAGGGATGCCAAAT-CTGCTATCTTCGATCTG-TTCCCTA
* * * *
53033442 TAAGCACAGGAATGTCAGATCTGCTATCTTCGGTCTG
1 TAAGCACAGGGATGCCAAATCTGCTATCTTCGATCTG
53033479 CTCCTCTCAA
Statistics
Matches: 646, Mismatches: 129, Indels: 89
0.75 0.15 0.10
Matches are distributed among these distances:
40 5 0.01
41 34 0.05
42 47 0.07
43 174 0.27
44 295 0.46
45 75 0.12
46 15 0.02
48 1 0.00
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (44 bp):
TAAGCACAGGGATGCCAAATCTGCTATCTTCGATCTGTTCCCTA
Found at i:53032826 original size:129 final size:129
Alignment explanation
Indices: 53032601--53032845 Score: 426
Period size: 129 Copynumber: 1.9 Consensus size: 129
53032591 CTATCTTTGA
53032601 TCTGATCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCCGTTCCCTATAAGCAC
1 TCTGATCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCCGTTCCCTATAAGCAC
53032666 AGGGATGCCAAATCTGTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCTGCTGAAATCTTT
66 AGGGATGCCAAATCTGTGTTTTCAACTTGTT-CCTATAAGCACAGGGATGCCTGCTGAAATCTTT
53032731 TCTGATCTGTTCACTGTAAGCACAGGAATGTCAGAT-TGCTATCTTCGATCCG-T-CCTATAAGC
1 TCTGATC--TTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCCGTTCCCTATAAGC
53032793 ACAGGGATGCC-AATCTGATGTTTTCAACTTGTTCCTATAAGCACAGGGATGCC
64 ACAGGGATGCCAAATCTG-TGTTTTCAACTTGTTCCTATAAGCACAGGGATGCC
53032846 AAATCTGATG
Statistics
Matches: 112, Mismatches: 0, Indels: 8
0.93 0.00 0.07
Matches are distributed among these distances:
128 26 0.23
129 35 0.31
130 8 0.07
131 16 0.14
132 27 0.24
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (129 bp):
TCTGATCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCCGTTCCCTATAAGCAC
AGGGATGCCAAATCTGTGTTTTCAACTTGTTCCTATAAGCACAGGGATGCCTGCTGAAATCTTT
Found at i:53033497 original size:132 final size:132
Alignment explanation
Indices: 53032821--53033473 Score: 1226
Period size: 132 Copynumber: 5.0 Consensus size: 132
53032811 TGTTTTCAAC
*
53032821 TTGTT-CCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGG
1 TTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGG
53032885 ATGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCG
66 ATGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCG
53032950 AT
131 AT
53032952 TTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCAC-GGG
1 TTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGG
*
53033016 ATGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCG
66 ATGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCG
53033081 AT
131 AT
* *
53033083 CTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAAC-TGTTCCCTATAAGCACAGGG
1 TTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGG
53033147 ATGCCATGCTG-AATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAG-TCTGCTATCTTCG
66 ATGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCG
53033210 AT
131 AT
53033212 TTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGG
1 TTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGG
53033277 ATGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCG
66 ATGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCG
53033342 AT
131 AT
53033344 TTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGG
1 TTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGG
*
53033409 ATGCCATGCTGAAATCTTGGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCG
66 ATGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCG
53033474 GTCTGCTCCT
Statistics
Matches: 509, Mismatches: 8, Indels: 9
0.97 0.02 0.02
Matches are distributed among these distances:
129 57 0.11
130 85 0.17
131 169 0.33
132 198 0.39
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (132 bp):
TTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGG
ATGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCG
AT
Found at i:53033663 original size:66 final size:68
Alignment explanation
Indices: 53033525--53033720 Score: 276
Period size: 67 Copynumber: 2.9 Consensus size: 68
53033515 TCTTCTTCCA
* * * *
53033525 CTGAAACTTCAAGGAGATCTGCTGTGGC-TTTAGCCTCTCCAATGCCATTTCTGGAAGAAGAGGT
1 CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGGAAGAAAAGAT
*
53033589 TTG
66 CTG
* *
53033592 CTGAAACTTCAAGGAGA-CTGTTGTGGCTTTTAGCCGCTCCAACGCC-TTTCAGGAAGAAAAGAT
1 CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGGAAGAAAAGAT
53033655 CCT-
66 -CTG
*
53033658 CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGGGA-AAAAGA
1 CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGGAAGAAAAGA
53033721 AATTTGTAAT
Statistics
Matches: 115, Mismatches: 10, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
66 40 0.35
67 67 0.58
68 8 0.07
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (68 bp):
CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGGAAGAAAAGAT
CTG
Found at i:53034004 original size:131 final size:131
Alignment explanation
Indices: 53033824--53034299 Score: 669
Period size: 131 Copynumber: 3.6 Consensus size: 131
53033814 TAAATTCAAC
* * *
53033824 CTGTTACCCTACTGGTTAGGGGGTTAAGATTTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAG-CTGTTACCCTACTGCTTAGG
* **
53033889 GGTTTAAGGCTTGTAAATTCGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATTTTTT
65 GGTTTAAGGCTTGTAAATTCGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCG
53033954 AT
130 AT
53033956 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCTGTTACCCTACTGCTTAGGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCTGTTACCCTACTGCTTAGGG
53034021 GTTTAAGGCTTGTAAATTCGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGA
66 GTTTAAGGCTTGTAAATTCGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGA
53034086 T
131 T
* * *
53034087 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCT-T-CATCTTCGATCTGTTTCCCTACTGCTTAGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTC-AGCTGTTACCCTACTGCTTAGG
* * * * * * * *
53034150 GAG-ATAA-GATCTG-CAATTCGG-TCTGTTACCCTACCGATTA-GGGGTTTAAGACCCTTCGTC
65 G-GTTTAAGGCT-TGTAAATTCGGCT-TGTTACCCTACTGCTTAGGGGGTTAAAG-CCCATCATC
53034210 TTCGAT
126 TTCGAT
*
53034216 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCTGTTACCCTATTGCTTAGGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCTGTTACCCTACTGCTTAGGG
* *
53034281 GCTTAAGGCTTGTGAATTC
66 GTTTAAGGCTTGTAAATTC
53034300 ACTGATTCTA
Statistics
Matches: 310, Mismatches: 24, Indels: 21
0.87 0.07 0.06
Matches are distributed among these distances:
128 10 0.03
129 76 0.25
130 53 0.17
131 130 0.42
132 41 0.13
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.36
Consensus pattern (131 bp):
CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCTGTTACCCTACTGCTTAGGG
GTTTAAGGCTTGTAAATTCGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGA
T
Found at i:53034243 original size:44 final size:43
Alignment explanation
Indices: 53033738--53034287 Score: 355
Period size: 44 Copynumber: 12.7 Consensus size: 43
53033728 AATTTCCAGC
* * * *
53033738 CTGTTACCCTACTACTTAGGGGTTTAAGGCCCATCATCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAA-GACCTTCATCTTCGAT
* * * * ** * *
53033782 CTATTTCCCAACTGCTTA-GGGGTTAAGATCTGT-AAATTCAAC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGACCT-TCATCTTCGAT
* ** * *
53033824 CTGTTACCCTACTGGTTAGGGGGTTAAGATTTGTAAATCTTC-AGC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGACCT-T-CATCTTCGA-T
* * * ** *
53033869 CTGTTACCCTACTGCTTAGGGGTTTAAG-GCTTGTAAATTCG-G
1 CTGTTACCCTACTGCTTAGGGGGTTAAGACCTT-CATCTTCGAT
* * * **
53033911 CTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATTTTTTAT
1 C-TGTTACCCTACTGCTTAGGGGGTT-AAGACCTTCATCTTCGAT
* * * *
53033956 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTC-AG
1 CTGTTACCCTACTGCTTAGGGGGTTAAGACCT-T-CATCTTCGAT
* * * ** *
53034000 CTGTTACCCTACTGCTTAGGGGTTTAAG-GCTTGTAAATTCG-G
1 CTGTTACCCTACTGCTTAGGGGGTTAAGACCTT-CATCTTCGAT
* *
53034042 CTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGAT
1 C-TGTTACCCTACTGCTTAGGGGGTT-AAGACCTTCATCTTCGAT
* *
53034087 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTTCATCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGACCTTCATCTTCGAT
* * * * * * *
53034130 CTGTTTCCCTACTGCTTAGGGAGATAAGATCTGCA-ATTCGGT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGACCTTCATCTTCGAT
* * * *
53034172 CTGTTACCCTACCGATTAGGGGTTTAAGACCCTTCGTCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGA-CCTTCATCTTCGAT
* * * *
53034216 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTC-AG
1 CTGTTACCCTACTGCTTAGGGGGTTAAGACCT-T-CATCTTCGAT
* *
53034260 CTGTTACCCTATTGCTTAGGGGCTTAAG
1 CTGTTACCCTACTGCTTAGGGGGTTAAG
53034288 GCTTGTGAAT
Statistics
Matches: 395, Mismatches: 90, Indels: 42
0.75 0.17 0.08
Matches are distributed among these distances:
42 57 0.14
43 131 0.33
44 161 0.41
45 46 0.12
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (43 bp):
CTGTTACCCTACTGCTTAGGGGGTTAAGACCTTCATCTTCGAT
Found at i:53034457 original size:66 final size:66
Alignment explanation
Indices: 53034351--53034477 Score: 236
Period size: 66 Copynumber: 1.9 Consensus size: 66
53034341 TCTATGCTTA
*
53034351 TGTCAAATGATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGTTATGAAT
1 TGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGTTATGAAT
53034416 G
66 G
*
53034417 TGTCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAGATGTGTTAT
1 TGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGTTAT
53034478 TATATGAATG
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 59 1.00
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (66 bp):
TGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGTTATGAAT
G
Found at i:53035629 original size:8 final size:8
Alignment explanation
Indices: 53035618--53035664 Score: 53
Period size: 8 Copynumber: 5.9 Consensus size: 8
53035608 TTTTTTAGAA
53035618 TTTTTTGT
1 TTTTTTGT
53035626 TTTTTT-T
1 TTTTTTGT
53035633 TGTTTTTGT
1 T-TTTTTGT
*
53035642 GTTTTTGT
1 TTTTTTGT
53035650 GTTTTTT-T
1 -TTTTTTGT
53035658 TTTTTTG
1 TTTTTTG
53035665 CCTTTGCCTT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
7 8 0.24
8 19 0.58
9 6 0.18
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (8 bp):
TTTTTTGT
Found at i:53035638 original size:16 final size:16
Alignment explanation
Indices: 53035619--53035663 Score: 65
Period size: 16 Copynumber: 2.9 Consensus size: 16
53035609 TTTTTAGAAT
53035619 TTTTTGTTTTTTTTTG
1 TTTTTGTTTTTTTTTG
* *
53035635 TTTTTGTGTTTTTGTG
1 TTTTTGTTTTTTTTTG
53035651 TTTTT-TTTTTTTT
1 TTTTTGTTTTTTTT
53035664 GCCTTTGCCT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
15 6 0.24
16 19 0.76
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (16 bp):
TTTTTGTTTTTTTTTG
Found at i:53035664 original size:16 final size:16
Alignment explanation
Indices: 53035603--53035664 Score: 61
Period size: 16 Copynumber: 3.8 Consensus size: 16
53035593 TTTTTTCCGC
* **
53035603 TTTTTTTTTTTAGAAT
1 TTTTTTTTTTTTGTGT
*
53035619 TTTTTGTTTTTTTTTGT
1 TTTTT-TTTTTTTGTGT
* *
53035636 TTTTGTGTTTTTGTGT
1 TTTTTTTTTTTTGTGT
53035652 TTTTTTTTTTTTG
1 TTTTTTTTTTTTG
53035665 CCTTTGCCTT
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
16 25 0.69
17 11 0.31
ACGTcount: A:0.05, C:0.00, G:0.13, T:0.82
Consensus pattern (16 bp):
TTTTTTTTTTTTGTGT
Found at i:53035664 original size:24 final size:24
Alignment explanation
Indices: 53035619--53035664 Score: 76
Period size: 24 Copynumber: 1.9 Consensus size: 24
53035609 TTTTTAGAAT
53035619 TTTTTGTTTTTTTTTGTTTTTGTG
1 TTTTTGTTTTTTTTTGTTTTTGTG
53035643 TTTTTGTGTTTTTTTT-TTTTTG
1 TTTTTGT-TTTTTTTTGTTTTTG
53035665 CCTTTGCCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
24 13 0.62
25 8 0.38
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (24 bp):
TTTTTGTTTTTTTTTGTTTTTGTG
Found at i:53035670 original size:6 final size:6
Alignment explanation
Indices: 53035661--53035696 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
53035651 TTTTTTTTTT
53035661 TTTGCC TTTGCC TTTGCC TTTGCC TTTGCC TTTGCC
1 TTTGCC TTTGCC TTTGCC TTTGCC TTTGCC TTTGCC
53035697 ATATAACTCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.00, C:0.33, G:0.17, T:0.50
Consensus pattern (6 bp):
TTTGCC
Found at i:53041009 original size:39 final size:39
Alignment explanation
Indices: 53040848--53041014 Score: 92
Period size: 39 Copynumber: 4.1 Consensus size: 39
53040838 TAAAAATAAT
* * *
53040848 ATTAAAGTAAAGTAAACAATAATACTATATATAATATATATAT
1 ATTAAAGT-AA-TAAAAAACAATACTATATATAA-ATAT-TAA
* * *
53040891 ATGTATA-TAATAGAAATAAACACTACTATATAATAATAATAATAA
1 AT-TAAAGTAAT--AAA-AAACAATACTATAT-AT-A-AATATTAA
* * *
53040936 A-TATAGAAATACAAAAAGCAA-A-TATAATAAAAATATTAA
1 ATTAAAGTAATA-AAAAA-CAATACTAT-ATATAAATATTAA
53040975 ATTAAAGTAATAAAAAACAATACTATATATAAATA-TAA
1 ATTAAAGTAATAAAAAACAATACTATATATAAATATTAA
53041013 AT
1 AT
53041015 ATATATATAT
Statistics
Matches: 97, Mismatches: 13, Indels: 33
0.68 0.09 0.23
Matches are distributed among these distances:
38 8 0.08
39 22 0.23
40 12 0.12
41 5 0.05
42 9 0.09
43 14 0.14
44 17 0.18
45 5 0.05
46 4 0.04
47 1 0.01
ACGTcount: A:0.60, C:0.05, G:0.04, T:0.30
Consensus pattern (39 bp):
ATTAAAGTAATAAAAAACAATACTATATATAAATATTAA
Found at i:53041023 original size:20 final size:20
Alignment explanation
Indices: 53040998--53041037 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
53040988 AAAACAATAC
*
53040998 TATATATAAATATAAATATA
1 TATATATAAATAAAAATATA
*
53041018 TATATATACATAAAAATATA
1 TATATATAAATAAAAATATA
53041038 CACTAATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (20 bp):
TATATATAAATAAAAATATA
Found at i:53041091 original size:127 final size:125
Alignment explanation
Indices: 53040830--53041058 Score: 293
Period size: 127 Copynumber: 1.8 Consensus size: 125
53040820 GGTTGGATAT
* * * * *
53040830 AATGATAATAAAAATAATATTAAAGTAAAGTAAACAATAATACTATATATAATATATATATATGT
1 AATGATAATAAAAATAAAATTAAAGTAAAGTAAAAAACAATACTATATATAATATAAATATATAT
* * * *
53040895 ATATAATAGAAATAAACACTACTATATAATAATAATAATAAATATAGAAATACAAAAAGCA
66 ATATAATAAAAATAAACACTAATATATAATAATAATAATAAATACAAAAATACAAAAA-CA
53040956 AAT-ATAATAAAAATATTAAATTAAAGT-AA-TAAAAAACAATACTATATATAAATATAAATATA
1 AATGATAATAAAAATA--AAATTAAAGTAAAGTAAAAAACAATACTATATAT-AATATAAATATA
* *
53041018 TATATATACATAAAAATATACACTAATATATAATAGTAATA
63 TATATATA-ATAAAAATAAACACTAATATATAATAATAATA
53041059 GTGATAGCAA
Statistics
Matches: 90, Mismatches: 9, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
125 30 0.33
126 23 0.26
127 37 0.41
ACGTcount: A:0.60, C:0.05, G:0.04, T:0.31
Consensus pattern (125 bp):
AATGATAATAAAAATAAAATTAAAGTAAAGTAAAAAACAATACTATATATAATATAAATATATAT
ATATAATAAAAATAAACACTAATATATAATAATAATAATAAATACAAAAATACAAAAACA
Found at i:53041274 original size:3 final size:3
Alignment explanation
Indices: 53041261--53041346 Score: 65
Period size: 3 Copynumber: 28.3 Consensus size: 3
53041251 GAGGGCATAT
53041261 ATA AT- ATA ATA ATA AT- ATAA ATA ATA ATA TATA CATGA GA-A ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A -ATA ATA
* *
53041305 ATA ATA ATA AT- ATAA ATA ATA GTA AAA ATA ATA A-A ATA ATA A
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA A
53041347 AACAAAGCTC
Statistics
Matches: 68, Mismatches: 6, Indels: 18
0.74 0.07 0.20
Matches are distributed among these distances:
2 9 0.13
3 48 0.71
4 9 0.13
5 2 0.03
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:53041285 original size:12 final size:12
Alignment explanation
Indices: 53041261--53041343 Score: 73
Period size: 12 Copynumber: 6.8 Consensus size: 12
53041251 GAGGGCATAT
53041261 ATAATAT-AATA
1 ATAATATAAATA
53041272 ATAATATAAATA
1 ATAATATAAATA
53041284 ATAATATATACATGA
1 ATAATATA-A-AT-A
53041299 GA-AATA-ATAATA
1 -ATAATATA-AATA
53041311 ATAATATAAATA
1 ATAATATAAATA
* *
53041323 ATAGTAAAAATA
1 ATAATATAAATA
*
53041335 ATAAAATAA
1 ATAATATAA
53041344 TAAAACAAAG
Statistics
Matches: 60, Mismatches: 5, Indels: 13
0.77 0.06 0.17
Matches are distributed among these distances:
11 8 0.13
12 37 0.62
13 4 0.07
14 5 0.08
15 5 0.08
16 1 0.02
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (12 bp):
ATAATATAAATA
Found at i:53041305 original size:21 final size:18
Alignment explanation
Indices: 53041266--53041346 Score: 76
Period size: 18 Copynumber: 4.4 Consensus size: 18
53041256 CATATATAAT
*
53041266 ATAATAATAATATAAATA
1 ATAATAATAATAGAAATA
53041284 ATAATATATACATGAGAAATA
1 ATAATA-ATA-AT-AGAAATA
*
53041305 ATAATAATAATATAAATA
1 ATAATAATAATAGAAATA
* *
53041323 ATAGTAAAAATA-ATAA-A
1 ATAATAATAATAGA-AATA
53041340 ATAATAA
1 ATAATAA
53041347 AACAAAGCTC
Statistics
Matches: 54, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
17 8 0.15
18 24 0.44
19 5 0.09
20 5 0.09
21 12 0.22
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (18 bp):
ATAATAATAATAGAAATA
Found at i:53041334 original size:27 final size:27
Alignment explanation
Indices: 53041261--53041347 Score: 78
Period size: 27 Copynumber: 3.4 Consensus size: 27
53041251 GAGGGCATAT
* *
53041261 ATAATAT-AATAATAATATAAATAATA
1 ATAATATAAATAATAGTAAAAATAATA
* *
53041287 AT-ATATACAT--GAG-AAATAATAATA
1 ATAATATAAATAATAGTAAA-AATAATA
53041311 ATAATATAAATAATAGTAAAAATAATA
1 ATAATATAAATAATAGTAAAAATAATA
53041338 A-AATAATAAA
1 ATAAT-ATAAA
53041348 ACAAAGCTCT
Statistics
Matches: 48, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
23 2 0.04
24 10 0.21
25 11 0.23
26 7 0.15
27 15 0.31
28 3 0.06
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (27 bp):
ATAATATAAATAATAGTAAAAATAATA
Found at i:53041706 original size:19 final size:20
Alignment explanation
Indices: 53041678--53041716 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
53041668 TTCTTTCCAA
*
53041678 AAAAACAAAAAAATACCTCC
1 AAAAACAAAAAAAAACCTCC
53041698 AAAAA-AAAAAAAAACCTCC
1 AAAAACAAAAAAAAACCTCC
53041717 TCCAAAACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.69, C:0.23, G:0.00, T:0.08
Consensus pattern (20 bp):
AAAAACAAAAAAAAACCTCC
Found at i:53041742 original size:23 final size:22
Alignment explanation
Indices: 53041673--53041748 Score: 84
Period size: 22 Copynumber: 3.4 Consensus size: 22
53041663 CAACCTTCTT
53041673 TCCAAAAAAACAAAAAAA--TACC
1 TCCAAAAAAA-AAAAAAACCT-CC
53041695 TCCAAAAAAAAAAAAAACCTCC
1 TCCAAAAAAAAAAAAAACCTCC
* * *
53041717 TCCAAAACAAAGAACAATCCTCC
1 TCCAAAA-AAAAAAAAAACCTCC
53041740 TCCAAAAAA
1 TCCAAAAAA
53041749 CCAAAACCCC
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
21 7 0.15
22 21 0.44
23 20 0.42
ACGTcount: A:0.61, C:0.28, G:0.01, T:0.11
Consensus pattern (22 bp):
TCCAAAAAAAAAAAAAACCTCC
Found at i:53041843 original size:19 final size:19
Alignment explanation
Indices: 53041819--53041881 Score: 56
Period size: 22 Copynumber: 3.0 Consensus size: 19
53041809 GGAGTGGTTG
53041819 GGGTGGT-TTAGGTGGCCAA
1 GGGTGGTGTT-GGTGGCCAA
53041838 GGGTGGTGGAGTTGGTGGCCAA
1 GGGTGGT---GTTGGTGGCCAA
53041860 GGGTGGTGGAGTTGGTGGCCAA
1 GGGTGGT---GTTGGTGGCCAA
53041882 TGTAACGCCC
Statistics
Matches: 40, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
19 7 0.17
22 31 0.77
23 2 0.05
ACGTcount: A:0.14, C:0.10, G:0.52, T:0.24
Consensus pattern (19 bp):
GGGTGGTGTTGGTGGCCAA
Found at i:53041854 original size:22 final size:22
Alignment explanation
Indices: 53041829--53041881 Score: 106
Period size: 22 Copynumber: 2.4 Consensus size: 22
53041819 GGGTGGTTTA
53041829 GGTGGCCAAGGGTGGTGGAGTT
1 GGTGGCCAAGGGTGGTGGAGTT
53041851 GGTGGCCAAGGGTGGTGGAGTT
1 GGTGGCCAAGGGTGGTGGAGTT
53041873 GGTGGCCAA
1 GGTGGCCAA
53041882 TGTAACGCCC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.15, C:0.11, G:0.53, T:0.21
Consensus pattern (22 bp):
GGTGGCCAAGGGTGGTGGAGTT
Found at i:53042251 original size:26 final size:26
Alignment explanation
Indices: 53042215--53042298 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
53042205 TGATACAAAT
*
53042215 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
53042241 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
53042267 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
53042293 TGATAA
1 TGATAA
53042299 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:53043773 original size:28 final size:26
Alignment explanation
Indices: 53043731--53043805 Score: 78
Period size: 26 Copynumber: 2.8 Consensus size: 26
53043721 AAAAGTAGCT
* * *
53043731 AAATTACTATAATACCCCTATGTATGAA
1 AAATTACTGTTATACCCCTA-G-ACGAA
* *
53043759 AAATTACTGTTATACCCCTAGGCGTA
1 AAATTACTGTTATACCCCTAGACGAA
*
53043785 AAATTACCGTTATACCCCTAG
1 AAATTACTGTTATACCCCTAG
53043806 GGTTAATTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
26 22 0.54
27 1 0.02
28 18 0.44
ACGTcount: A:0.36, C:0.23, G:0.11, T:0.31
Consensus pattern (26 bp):
AAATTACTGTTATACCCCTAGACGAA
Found at i:53043950 original size:27 final size:27
Alignment explanation
Indices: 53043909--53044048 Score: 174
Period size: 27 Copynumber: 5.2 Consensus size: 27
53043899 GAGGAAGCGT
*
53043909 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
53043936 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* * *
53043963 TCTGGTAGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
53043990 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
53044018 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
53044044 TCTGG
1 TCTGG
53044049 CAGCCATGCT
Statistics
Matches: 100, Mismatches: 12, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
26 5 0.05
27 80 0.80
28 15 0.15
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:53048036 original size:16 final size:16
Alignment explanation
Indices: 53048011--53048041 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
53048001 ACTACACCAG
*
53048011 AAATATAACAAAATAC
1 AAATAGAACAAAATAC
53048027 AAATAGAACAAAATA
1 AAATAGAACAAAATA
53048042 ATGATAGAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.10, G:0.03, T:0.16
Consensus pattern (16 bp):
AAATAGAACAAAATAC
Found at i:53048531 original size:12 final size:12
Alignment explanation
Indices: 53048514--53048546 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
53048504 TTGAAGAACC
53048514 ATTAATCATGTT
1 ATTAATCATGTT
53048526 ATTAATCATGTT
1 ATTAATCATGTT
53048538 ATTAATCAT
1 ATTAATCAT
53048547 ATATGCAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.36, C:0.09, G:0.06, T:0.48
Consensus pattern (12 bp):
ATTAATCATGTT
Found at i:53049944 original size:13 final size:13
Alignment explanation
Indices: 53049926--53049962 Score: 74
Period size: 13 Copynumber: 2.8 Consensus size: 13
53049916 ACACAAAAAG
53049926 ATTTGGTTAAACA
1 ATTTGGTTAAACA
53049939 ATTTGGTTAAACA
1 ATTTGGTTAAACA
53049952 ATTTGGTTAAA
1 ATTTGGTTAAA
53049963 GCCTCTAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.38, C:0.05, G:0.16, T:0.41
Consensus pattern (13 bp):
ATTTGGTTAAACA
Found at i:53054122 original size:7 final size:7
Alignment explanation
Indices: 53054110--53054238 Score: 75
Period size: 7 Copynumber: 18.1 Consensus size: 7
53054100 ACTAATTAAT
53054110 CTAAACC
1 CTAAACC
53054117 CTAAACC
1 CTAAACC
*
53054124 TCTTAACCC
1 -C-TAAACC
*
53054133 CT-ATCC
1 CTAAACC
*
53054139 CATAAACA
1 C-TAAACC
*
53054147 CTAAACT
1 CTAAACC
53054154 CTAAACC
1 CTAAACC
*
53054161 CTTAACC
1 CTAAACC
*
53054168 CTTAACC
1 CTAAACC
*
53054175 CCAAACC
1 CTAAACC
*
53054182 CTTACACC
1 C-TAAACC
*
53054190 TTAAACTC
1 CTAAAC-C
53054198 C--AACC
1 CTAAACC
*
53054203 CTAACCC
1 CTAAACC
53054210 CTAAACC
1 CTAAACC
*
53054217 CTAAATC
1 CTAAACC
* *
53054224 ATAATCC
1 CTAAACC
53054231 CTAAACC
1 CTAAACC
53054238 C
1 C
53054239 ATAATTCATC
Statistics
Matches: 92, Mismatches: 22, Indels: 16
0.71 0.17 0.12
Matches are distributed among these distances:
5 2 0.02
6 7 0.08
7 68 0.74
8 10 0.11
9 5 0.05
ACGTcount: A:0.37, C:0.42, G:0.00, T:0.21
Consensus pattern (7 bp):
CTAAACC
Found at i:53054307 original size:21 final size:21
Alignment explanation
Indices: 53054281--53054365 Score: 89
Period size: 21 Copynumber: 3.9 Consensus size: 21
53054271 ACTCCTAAAC
*
53054281 CTTAAACCCTAAACCATATAT
1 CTTAAACCATAAACCATATAT
* * *
53054302 CTTAAACTATAGTTAACTCATAAAC
1 CTTAAACCATA---AAC-CATATAT
*
53054327 CTTAAACCCTAAACCATATAT
1 CTTAAACCATAAACCATATAT
53054348 CTTAAACCATAAACCATA
1 CTTAAACCATAAACCATA
53054366 AACTATAATG
Statistics
Matches: 51, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
21 31 0.61
22 3 0.06
24 3 0.06
25 14 0.27
ACGTcount: A:0.45, C:0.26, G:0.01, T:0.28
Consensus pattern (21 bp):
CTTAAACCATAAACCATATAT
Found at i:53054318 original size:46 final size:46
Alignment explanation
Indices: 53054265--53054354 Score: 171
Period size: 46 Copynumber: 2.0 Consensus size: 46
53054255 CTTCAAATAC
*
53054265 TAGTTAACTCCTAAACCTTAAACCCTAAACCATATATCTTAAACTA
1 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACTA
53054311 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAAC
1 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAAC
53054355 CATAAACCAT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.42, C:0.26, G:0.02, T:0.30
Consensus pattern (46 bp):
TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACTA
Found at i:53054334 original size:7 final size:7
Alignment explanation
Indices: 53054320--53054373 Score: 54
Period size: 7 Copynumber: 7.7 Consensus size: 7
53054310 ATAGTTAACT
53054320 CATAAAC
1 CATAAAC
*
53054327 CTTAAAC
1 CATAAAC
*
53054334 CCTAAAC
1 CATAAAC
* *
53054341 CATATAT
1 CATAAAC
*
53054348 CTTAAAC
1 CATAAAC
53054355 CATAAAC
1 CATAAAC
53054362 CATAAAC
1 CATAAAC
*
53054369 TATAA
1 CATAA
53054374 TGATAATTAA
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
7 37 1.00
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (7 bp):
CATAAAC
Found at i:53054576 original size:41 final size:41
Alignment explanation
Indices: 53054529--53054749 Score: 381
Period size: 41 Copynumber: 5.4 Consensus size: 41
53054519 GGTTATATGA
*
53054529 CTTTTAGTGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGG
1 CTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGG
* *
53054570 TTTTTAGCGGCGTTTTACCAAAAACGCCGCTAATGCTCTGG
1 CTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGG
*
53054611 CTTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGG
1 CTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGG
53054652 CTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGG
1 CTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGG
53054693 CTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCT-G
1 CTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGG
* *
53054733 TTTTTTGCGGCGTTTTA
1 CTTTTAGCGGCGTTTTA
53054750 GTAAAAAAAC
Statistics
Matches: 171, Mismatches: 9, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
40 16 0.09
41 155 0.91
ACGTcount: A:0.19, C:0.25, G:0.24, T:0.33
Consensus pattern (41 bp):
CTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGG
Found at i:53054821 original size:123 final size:123
Alignment explanation
Indices: 53054526--53054790 Score: 390
Period size: 123 Copynumber: 2.2 Consensus size: 123
53054516 AGGGGTTATA
*
53054526 TGACTTTTAGTGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCAA
1 TGACTTTTAGTGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGCTTTTAGCGGCGTTTTACCAA
** * *
53054591 AAACGCCGCTAATGCTCTGGCTTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTC
66 AAACGCCGCTAATGCTCTGGCTTTTAGCGGCGTTTTTAAAAAAACGCCGCTAATACTC
* *
53054649 TGGCTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGCTTTTAGCGGCGTTTTACCAA
1 TGACTTTTAGTGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGCTTTTAGCGGCGTTTTACCAA
* * * *
53054714 AAGCGCCGCTAATGCTCT-GTTTTTTGCGGCGTTTTAGTAAAAAAACGCCGCTATTACTC
66 AAACGCCGCTAATGCTCTGGCTTTTAGCGGCGTTTT--TAAAAAAACGCCGCTAATACTC
*
53054773 T-ATTTTTAGTGGCGTTTT
1 TGACTTTTAGTGGCGTTTT
53054791 TGGTAAAGCG
Statistics
Matches: 126, Mismatches: 14, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
122 15 0.12
123 93 0.74
124 18 0.14
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (123 bp):
TGACTTTTAGTGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGCTTTTAGCGGCGTTTTACCAA
AAACGCCGCTAATGCTCTGGCTTTTAGCGGCGTTTTTAAAAAAACGCCGCTAATACTC
Found at i:53059812 original size:40 final size:40
Alignment explanation
Indices: 53059801--53059987 Score: 356
Period size: 40 Copynumber: 4.7 Consensus size: 40
53059791 GTAATTCGTG
*
53059801 CAAATGCCTTCGGGACTTAACCCGGATTTGGTAACTCGCA
1 CAAATGCCTTCGGGAATTAACCCGGATTTGGTAACTCGCA
*
53059841 CAATTGCCTTCGGGAATTAACCCGGATTTGGTAACTCGCA
1 CAAATGCCTTCGGGAATTAACCCGGATTTGGTAACTCGCA
53059881 CAAATGCCTTCGGGAATTAACCCGGATTTGGTAACTCGCA
1 CAAATGCCTTCGGGAATTAACCCGGATTTGGTAACTCGCA
53059921 CAAATGCCTTCGGGAATTAACCCGGATTTGGTAACTCGCA
1 CAAATGCCTTCGGGAATTAACCCGGATTTGGTAACTCGCA
53059961 CAAATGCCTTCGGGAATTAACCCGGAT
1 CAAATGCCTTCGGGAATTAACCCGGAT
53059988 ATCATTCGAA
Statistics
Matches: 144, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 144 1.00
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGAATTAACCCGGATTTGGTAACTCGCA
Found at i:53064491 original size:16 final size:17
Alignment explanation
Indices: 53064463--53064496 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
53064453 CTTTTATTGC
*
53064463 ATTTTATATTTGTTTTT
1 ATTTTATATTTGTGTTT
53064480 ATTTTA-ATTTGTGTTT
1 ATTTTATATTTGTGTTT
53064496 A
1 A
53064497 CTAACTTTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.21, C:0.00, G:0.09, T:0.71
Consensus pattern (17 bp):
ATTTTATATTTGTGTTT
Found at i:53069643 original size:80 final size:80
Alignment explanation
Indices: 53069559--53069707 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
53069549 TATGGTAACC
* * * *
53069559 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
53069623 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
53069639 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
53069704 CCGG
66 CCGG
53069708 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:53069649 original size:40 final size:38
Alignment explanation
Indices: 53069600--53069707 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
53069590 ATCACGATTT
*
53069600 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
53069640 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
53069680 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
53069708 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:53077738 original size:39 final size:38
Alignment explanation
Indices: 53077581--53077761 Score: 143
Period size: 39 Copynumber: 4.6 Consensus size: 38
53077571 CCGCACCAAG
* * * * * *
53077581 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATAT-AC-ACTAGCACAATT
* *
53077621 GCCTTCGGGTCTTAGCCCGGATAGAATGACT-GCACGAA-T
1 GCCTTCGGGTCTTAGCCCGGATA-TA-CACTAGCAC-AATT
53077660 GCCTTCGGGTCTTAGCCCGGATATAGCACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATA-CACTAGCACAATT
* * * *
53077699 GCCTTCGGGTCTTAACCCGGTTATA-ATTTCAGCATAATT
1 GCCTTCGGGTCTTAGCCCGGATATACA-CT-AGCACAATT
* *
53077738 GTCTTCGGGGCTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
53077762 CATTCAATTT
Statistics
Matches: 117, Mismatches: 17, Indels: 15
0.79 0.11 0.10
Matches are distributed among these distances:
37 1 0.01
38 7 0.06
39 84 0.72
40 25 0.21
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (38 bp):
GCCTTCGGGTCTTAGCCCGGATATACACTAGCACAATT
Found at i:53077744 original size:78 final size:78
Alignment explanation
Indices: 53077613--53077761 Score: 192
Period size: 78 Copynumber: 1.9 Consensus size: 78
53077603 ATCACGATTT
* * *
53077613 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTGCACGAATGCCTTCGGGTCTTAGCCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACAGCACGAATGCCTTCGGGGCTTAGCCC
53077678 GGATATAGCACTA
66 GGATATAGCACTA
* * * ** * *
53077691 GCACAATTGCCTTCGGGTCTTAACCCGGTTATAATTTCAGCA-TAATTGTCTTCGGGGCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACAGCACGAA-TGCCTTCGGGGCTTAGCC
53077755 CGGATAT
65 CGGATAT
53077762 CATTCAATTT
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
77 2 0.03
78 58 0.97
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.28
Consensus pattern (78 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACAGCACGAATGCCTTCGGGGCTTAGCCC
GGATATAGCACTA
Found at i:53079586 original size:70 final size:71
Alignment explanation
Indices: 53079450--53079732 Score: 317
Period size: 71 Copynumber: 3.9 Consensus size: 71
53079440 GAATAAAAAG
* * *
53079450 AATTGAAAATA-CTCAGCGTG-CCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
1 AATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA
53079513 AACATA
66 AACATA
*
53079519 AATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGC-ATATGAGTTGATTTTTGA
1 AATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA
53079583 AACAT-
66 AACATA
* * * *
53079588 AATTAAAAAGCAAAAATTGAAATACCTCAGCGTGCCCTGA-GCTCAACTTACTTCTCGCAATATG
1 AATT-----G---AAA-T----TACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
53079652 AGTTGATTTTTGAAAACATA
53 AGTTGATTTTTG-AAACATA
*
53079672 AATTGAAATTACCTCAACGTGT-CTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
1 AATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
53079733 CTTGGAAAAC
Statistics
Matches: 181, Mismatches: 14, Indels: 36
0.78 0.06 0.16
Matches are distributed among these distances:
69 14 0.08
70 35 0.19
71 64 0.35
74 1 0.01
75 1 0.01
76 3 0.02
77 3 0.02
78 1 0.01
79 1 0.01
81 16 0.09
82 32 0.18
83 6 0.03
84 4 0.02
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (71 bp):
AATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA
AACATA
Found at i:53079869 original size:160 final size:161
Alignment explanation
Indices: 53079432--53079996 Score: 961
Period size: 160 Copynumber: 3.6 Consensus size: 161
53079422 GAGTGATTTT
53079432 GAAAACATGAA-TAAAAAG----AATTGAAAATA-CTCAGCGTG-CCTGAGGCTCAACTCACTTC
1 GAAAACATGAATTAAAAAGCAAAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTC
53079490 TCGCAATATGAGTTGATTTTTG-AAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAAC
66 TCGCAATATGAGTTGATTTTTGAAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAAC
*
53079554 TCACCTCTCGC-ATATGAGTTGA-TTT-TT-
131 TCACCTCTCGCAATATGAGCTGATTTTCTTG
*
53079581 G-AAACAT-AATTAAAAAGCAAAAATTG-AAATACCTCAGCGTGCCCTGA-GCTCAACTTACTTC
1 GAAAACATGAATTAAAAAGCAAAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTC
53079642 TCGCAATATGAGTTGATTTTTGAAAACATAAATTGAAATTACCTCAACGTGTC-TGAGGCTCAAC
66 TCGCAATATGAGTTGATTTTTGAAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAAC
53079706 TCACCTCTCGCAATATGAGCTGATTTTCTTG
131 TCACCTCTCGCAATATGAGCTGATTTTCTTG
53079737 GAAAACATGAATTAAAAAGCAAAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTC
1 GAAAACATGAATTAAAAAGCAAAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTC
53079802 TCGCAATATGAGTTGATTTTTG-AAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAAC
66 TCGCAATATGAGTTGATTTTTGAAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAAC
53079866 TCACCTCTCGCAATATGAGCTGATTTTCTTG
131 TCACCTCTCGCAATATGAGCTGATTTTCTTG
*
53079897 GAAAACATGAATTAAAAAGTAGAAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTT
1 GAAAACATGAATTAAAAAGCA-AAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTT
53079962 CTCGCAATATGAGTTGATTTTTGAAAACA-AAATTG
65 CTCGCAATATGAGTTGATTTTTGAAAACATAAATTG
53079997 GAGGACAGAA
Statistics
Matches: 393, Mismatches: 4, Indels: 26
0.93 0.01 0.06
Matches are distributed among these distances:
147 2 0.01
148 13 0.03
149 1 0.00
151 5 0.01
152 71 0.18
153 45 0.11
154 3 0.01
155 2 0.01
156 1 0.00
157 6 0.02
158 19 0.05
159 51 0.13
160 97 0.25
161 72 0.18
162 5 0.01
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (161 bp):
GAAAACATGAATTAAAAAGCAAAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTC
TCGCAATATGAGTTGATTTTTGAAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAAC
TCACCTCTCGCAATATGAGCTGATTTTCTTG
Found at i:53079875 original size:71 final size:71
Alignment explanation
Indices: 53079759--53079892 Score: 214
Period size: 71 Copynumber: 1.9 Consensus size: 71
53079749 TAAAAAGCAA
* * *
53079759 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTG
53079824 AAACAT
66 AAACAT
* * *
53079830 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
1 AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
53079893 CTTGGAAAAC
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
71 57 1.00
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (71 bp):
AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTG
AAACAT
Found at i:53092326 original size:11 final size:11
Alignment explanation
Indices: 53092310--53092369 Score: 50
Period size: 11 Copynumber: 5.2 Consensus size: 11
53092300 AGTAACATTA
53092310 AAAATATATAT
1 AAAATATATAT
53092321 AAAATATATATT
1 AAAATATATA-T
*
53092333 AAAAGACTTATAT
1 AAAATA--TATAT
* *
53092346 ATAACATATAT
1 AAAATATATAT
53092357 GAAAA-ATATAT
1 -AAAATATATAT
53092368 AA
1 AA
53092370 TATTAAACAT
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
10 2 0.05
11 21 0.51
12 9 0.22
13 5 0.12
14 4 0.10
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.33
Consensus pattern (11 bp):
AAAATATATAT
Found at i:53092372 original size:25 final size:24
Alignment explanation
Indices: 53092309--53092368 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
53092299 TAGTAACATT
* * *
53092309 AAAAATATATATAAAATATATATT
1 AAAAATATATATATAACATATATG
53092333 AAAAGACT-TATATATAACATATATG
1 AAAA-A-TATATATATAACATATATG
53092358 AAAAATATATA
1 AAAAATATATA
53092369 ATATTAAACA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
23 1 0.03
24 9 0.30
25 19 0.63
26 1 0.03
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.33
Consensus pattern (24 bp):
AAAAATATATATATAACATATATG
Found at i:53093101 original size:12 final size:14
Alignment explanation
Indices: 53093065--53093092 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
53093055 AAAAGAGAGA
53093065 AAAGGAGAGGGGAG
1 AAAGGAGAGGGGAG
53093079 AAAGGAGAGGGGAG
1 AAAGGAGAGGGGAG
53093093 GAGAGAGGGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.57, T:0.00
Consensus pattern (14 bp):
AAAGGAGAGGGGAG
Found at i:53102724 original size:1 final size:1
Alignment explanation
Indices: 53102718--53102743 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
53102708 TTTAAGTTGG
53102718 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
53102744 ATCAATACAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:53108692 original size:14 final size:14
Alignment explanation
Indices: 53108670--53108699 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
53108660 TTATAACTTG
*
53108670 GAAAGAGAAAAAAA
1 GAAAAAGAAAAAAA
53108684 GAAAAAGAAAAAAA
1 GAAAAAGAAAAAAA
53108698 GA
1 GA
53108700 GTTTAATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (14 bp):
GAAAAAGAAAAAAA
Found at i:53109958 original size:4 final size:4
Alignment explanation
Indices: 53109934--53109974 Score: 57
Period size: 4 Copynumber: 10.2 Consensus size: 4
53109924 AAAAGAACAA
*
53109934 AAAC AAA- AAAA AAAC ACAAC AAAC AAAC AAAC AAAC AAAC A
1 AAAC AAAC AAAC AAAC A-AAC AAAC AAAC AAAC AAAC AAAC A
53109975 CCCTAGTAAC
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
3 3 0.09
4 27 0.79
5 4 0.12
ACGTcount: A:0.78, C:0.22, G:0.00, T:0.00
Consensus pattern (4 bp):
AAAC
Found at i:53112456 original size:24 final size:25
Alignment explanation
Indices: 53112429--53112475 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
53112419 TATTCGTGCA
*
53112429 ATTT-CAATTTTTTAAAAAAAAAAT
1 ATTTACAAATTTTTAAAAAAAAAAT
* *
53112453 ATTTATAAATTTTTAAGAAAAAA
1 ATTTACAAATTTTTAAAAAAAAA
53112476 TTCAAGTTAC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 4 0.21
25 15 0.79
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (25 bp):
ATTTACAAATTTTTAAAAAAAAAAT
Found at i:53114793 original size:27 final size:27
Alignment explanation
Indices: 53114755--53114839 Score: 152
Period size: 27 Copynumber: 3.1 Consensus size: 27
53114745 TAGGAAAAGA
53114755 AAATGCTTATGTTATTGGTGTGGTGCC
1 AAATGCTTATGTTATTGGTGTGGTGCC
53114782 AAATGCTTATGTTATTGGTGTGGTGCC
1 AAATGCTTATGTTATTGGTGTGGTGCC
* *
53114809 AAATACTTATGTTATTGGTGTAGTGCC
1 AAATGCTTATGTTATTGGTGTGGTGCC
53114836 AAAT
1 AAAT
53114840 TTGGTGAAAT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.24, C:0.11, G:0.26, T:0.40
Consensus pattern (27 bp):
AAATGCTTATGTTATTGGTGTGGTGCC
Found at i:53119420 original size:13 final size:14
Alignment explanation
Indices: 53119404--53119434 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
53119394 GTTAAAAGTG
53119404 TAAATTAA-TAAAA
1 TAAATTAAGTAAAA
53119417 TAAATTAAGTAAAA
1 TAAATTAAGTAAAA
53119431 TAAA
1 TAAA
53119435 AATAACATGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.47
14 9 0.53
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (14 bp):
TAAATTAAGTAAAA
Found at i:53122286 original size:6 final size:6
Alignment explanation
Indices: 53122277--53122302 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
53122267 ATTATTATTA
53122277 TTTTCG TTTTCG TTTTCG TTTTCG TT
1 TTTTCG TTTTCG TTTTCG TTTTCG TT
53122303 ATCATCGTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.15, G:0.15, T:0.69
Consensus pattern (6 bp):
TTTTCG
Found at i:53122341 original size:40 final size:40
Alignment explanation
Indices: 53122290--53122372 Score: 166
Period size: 40 Copynumber: 2.1 Consensus size: 40
53122280 TCGTTTTCGT
53122290 TTTCGTTTTCGTTATCATCGTCATTTTTATTTTTGCCATG
1 TTTCGTTTTCGTTATCATCGTCATTTTTATTTTTGCCATG
53122330 TTTCGTTTTCGTTATCATCGTCATTTTTATTTTTGCCATG
1 TTTCGTTTTCGTTATCATCGTCATTTTTATTTTTGCCATG
53122370 TTT
1 TTT
53122373 AACATTTGTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.12, C:0.17, G:0.12, T:0.59
Consensus pattern (40 bp):
TTTCGTTTTCGTTATCATCGTCATTTTTATTTTTGCCATG
Done.